User Tools

Site Tools


Sidebar

This is the sidebar. Without it, the main text is too wide!

two_bt_strains_2016

This is an old revision of the document!


Bacillus thuringiensis serovar kurstaki BP865 (=KCTC 8689P) and serovar aizawai HD-133

  • Title: Genome sequences of Bacillus thuringiensis serovar kurstaki strain BP865 and B. thuringiensis serovar aizawai strain HD-133

ANI analysis (pyani)

Placement of contigs into putative plasmids

Complete plasmid sequences for all B. thuringiensis strains were extracted from RefSeq plasmid and were converted into blast database.

bt_plasmid.fna.gz

Contig sequences were then searched against the custome DB using BLAST+ (blastn). Contigs with query coverages >= 95% were chosen for putative plasmidic sequences.

Commands for blast search

blastn -query BP865_KRIBB.fna -db Bt_plasmid.fna -outfmt "6 std qcovs" -num_threads 30 -out out_BP865
blastn -query BTaizawai_KRIBB.fna -db Bt_plasmid.fna -outfmt "6 std qcovs" -num_threads 30 -out out_BTaizawai

Using different cutoff values

BP865
Coverage (%) >=80 >=85 >=90 >=95
No. contigs 94 85 92 87
Sum. contigs 935887 916779 916779 910387
Chromosome size 5472372 5491480 5491480 5497872
HD-133
Coverage (%) >=80 >=85 >=90 >=95
No. contigs 93 90 87 77
Sum. contigs 920789 906873 848797 687161
Chromosome size 5517481 5531397 5589473 5751109

Putative plasmid sequences

bp865_plasmid.fna.gz hd-133_plasmid.fna.gz

two_bt_strains_2016.1479201269.txt.gz · Last modified: 2016/11/15 18:14 by hyjeong